miRNA display CGI


Results 1 - 20 of 22 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
19008 3' -59.6 NC_004684.1 + 60247 0.66 0.546617
Target:  5'- --aGGcGGUGGCCAccuuccgggUGuACCUCGGcGGUg -3'
miRNA:   3'- uugCC-CCACUGGU---------AC-UGGAGCC-CCAg -5'
19008 3' -59.6 NC_004684.1 + 62865 0.66 0.522999
Target:  5'- -cCGGGGUGAuuugaaccccggguCCAcggUGGCCgccagcucggCGGGGUUa -3'
miRNA:   3'- uuGCCCCACU--------------GGU---ACUGGa---------GCCCCAG- -5'
19008 3' -59.6 NC_004684.1 + 64951 0.66 0.515888
Target:  5'- uGGCGGGcgGUGGCCcgguucaggucgAUGACCgcgaCGcGGGUCu -3'
miRNA:   3'- -UUGCCC--CACUGG------------UACUGGa---GC-CCCAG- -5'
19008 3' -59.6 NC_004684.1 + 47292 0.66 0.505798
Target:  5'- cAGCGGuGGcugGACCuUGuCgUCGGGGUUg -3'
miRNA:   3'- -UUGCC-CCa--CUGGuACuGgAGCCCCAG- -5'
19008 3' -59.6 NC_004684.1 + 62797 0.66 0.505798
Target:  5'- cGGCGGGGUuGCCG-GGCaggCGGGGg- -3'
miRNA:   3'- -UUGCCCCAcUGGUaCUGga-GCCCCag -5'
19008 3' -59.6 NC_004684.1 + 26655 0.66 0.495793
Target:  5'- -uCGGGGUGucggagguGCCGau-CCUCGGGGcCa -3'
miRNA:   3'- uuGCCCCAC--------UGGUacuGGAGCCCCaG- -5'
19008 3' -59.6 NC_004684.1 + 45961 0.66 0.495793
Target:  5'- cGACGGcGGccuCCAUGACCUCGGccaguucGUCg -3'
miRNA:   3'- -UUGCC-CCacuGGUACUGGAGCCc------CAG- -5'
19008 3' -59.6 NC_004684.1 + 12734 0.66 0.495793
Target:  5'- --aGGGaGacACCAUGGCCaUgGGGGUCg -3'
miRNA:   3'- uugCCC-CacUGGUACUGG-AgCCCCAG- -5'
19008 3' -59.6 NC_004684.1 + 41916 0.67 0.485879
Target:  5'- gGACGacaucGUGGCCGUGACCaaGGcGGUCa -3'
miRNA:   3'- -UUGCcc---CACUGGUACUGGagCC-CCAG- -5'
19008 3' -59.6 NC_004684.1 + 40356 0.67 0.466341
Target:  5'- uGGCGGcGGccuUGGCCuugggGGCCUCGGcGGUg -3'
miRNA:   3'- -UUGCC-CC---ACUGGua---CUGGAGCC-CCAg -5'
19008 3' -59.6 NC_004684.1 + 54638 0.67 0.462482
Target:  5'- gGACGGGGUGuugugggcgacccCCAUGGCCaUGGuGUCu -3'
miRNA:   3'- -UUGCCCCACu------------GGUACUGGaGCCcCAG- -5'
19008 3' -59.6 NC_004684.1 + 33720 0.67 0.456726
Target:  5'- cGCGGuGGUGgugcacagcgacGCCAUGcCCggcgaGGGGUCg -3'
miRNA:   3'- uUGCC-CCAC------------UGGUACuGGag---CCCCAG- -5'
19008 3' -59.6 NC_004684.1 + 66812 0.69 0.366973
Target:  5'- -uCGGGGUcucGACgGUGGCCUCGGccuuGUCc -3'
miRNA:   3'- uuGCCCCA---CUGgUACUGGAGCCc---CAG- -5'
19008 3' -59.6 NC_004684.1 + 40710 0.69 0.342516
Target:  5'- gGGCGGcGGUGGCCGggacGACCagcgcggCGGGGg- -3'
miRNA:   3'- -UUGCC-CCACUGGUa---CUGGa------GCCCCag -5'
19008 3' -59.6 NC_004684.1 + 29305 0.69 0.333848
Target:  5'- cGACGGcGGUGguuuguacccgucGCCGuugagcuucuUGGCCUCGGGGg- -3'
miRNA:   3'- -UUGCC-CCAC-------------UGGU----------ACUGGAGCCCCag -5'
19008 3' -59.6 NC_004684.1 + 58237 0.7 0.329188
Target:  5'- aGACGGugucgucGGccaggccgagcaucuUGACCAUGGCCUCGGcGGUg -3'
miRNA:   3'- -UUGCC-------CC---------------ACUGGUACUGGAGCC-CCAg -5'
19008 3' -59.6 NC_004684.1 + 26043 0.7 0.290119
Target:  5'- gAACcGGGUGGCCuUGGCCcggccgUCGGcGGUCg -3'
miRNA:   3'- -UUGcCCCACUGGuACUGG------AGCC-CCAG- -5'
19008 3' -59.6 NC_004684.1 + 66672 0.71 0.275676
Target:  5'- -uCGGGGUaguuggagcgccaGGCCGuccaccggcggcUGACCUCGGGGcCg -3'
miRNA:   3'- uuGCCCCA-------------CUGGU------------ACUGGAGCCCCaG- -5'
19008 3' -59.6 NC_004684.1 + 53897 0.71 0.269664
Target:  5'- cGugGGGGUGGuuGUGACg--GGGGUCa -3'
miRNA:   3'- -UugCCCCACUggUACUGgagCCCCAG- -5'
19008 3' -59.6 NC_004684.1 + 66633 0.72 0.238177
Target:  5'- uGCGGccuuGGUGGCCAcgaUGGCCUCGGcggcggcccGGUCa -3'
miRNA:   3'- uUGCC----CCACUGGU---ACUGGAGCC---------CCAG- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.